7R5V: Human CCAN CENP-A alpha-satellite complex
Structure of the human CCAN CENP-A alpha-satellite complex. Determined by electron microscopy at 4.55 Å resolution. Released 27 Apr 2022.
- Method
- Electron microscopy
- Resolution
- 4.55 Å
- Organism
- Homo sapiens
- Chains
- 13
- Atoms
- 18,507
- Mol. weight
- 516.48 kDa
- Released
- 27 Apr 2022
Explore 7R5V in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
7R5V contains 98 α-helices and 56 β-strands across 11 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
Chain H: 3 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 41-63 | 23 | |
| α-helix | 80-114 | 35 | |
| α-helix | 126-182 | 57 | |
Chain I: 24 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 311-313 | 3 | |
| α-helix | 338-340 | 3 | |
| α-helix | 347-353 | 7 | |
| α-helix | 365-368 | 4 | |
| α-helix | 370-379 | 10 | |
| α-helix | 382-403 | 22 | |
| α-helix | 412-426 | 15 | |
| α-helix | 434-442 | 9 | |
| α-helix | 452-458 | 7 | |
| α-helix | 470 | 1 | |
| α-helix | 471-475 | 5 | |
| α-helix | 476-482 | 7 | |
| α-helix | 487-508 | 22 | |
| α-helix | 530-550 | 21 | |
| α-helix | 555-568 | 14 | |
| α-helix | 571-575 | 5 | |
| α-helix | 582-584 | 3 | |
| α-helix | 585-592 | 8 | |
| α-helix | 597-616 | 20 | |
| α-helix | 635-650 | 16 | |
| α-helix | 686-688 | 3 | |
| α-helix | 689-697 | 9 | |
| α-helix | 720-725 | 6 | |
| α-helix | 729-737 | 9 | |
Chain K: 3 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 20-42 | 23 | |
| α-helix | 55-76 | 22 | |
| α-helix | 86-149 | 64 | |
Chain L: 16 helices, 16 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 27-37 | 11 | |
| α-helix | 43-46 | 4 | |
| β-strand | 47-48 | 2 | 1 |
| α-helix | 49-50 | 2 | |
| α-helix | 54-56 | 3 | |
| α-helix | 61-67 | 7 | |
| β-strand | 71-77 | 7 | 2 |
| α-helix | 78-79 | 2 | |
| β-strand | 80-81 | 2 | 3 |
| α-helix | 88-102 | 15 | |
| β-strand | 117-124 | 8 | 2 |
| α-helix | 134-135 | 2 | |
| β-strand | 136-143 | 8 | 2 |
| β-strand | 156-163 | 8 | 2 |
| α-helix | 169-172 | 4 | |
| β-strand | 178-179 | 2 | 3 |
| β-strand | 183-187 | 5 | 2 |
| α-helix | 190-204 | 15 | |
| β-strand | 208-210 | 3 | 2 |
| α-helix | 215-227 | 13 | |
| β-strand | 237-242 | 6 | 2 |
| β-strand | 251-256 | 6 | 2 |
| α-helix | 258-267 | 10 | |
| β-strand | 274-275 | 2 | 1 |
| α-helix | 277-295 | 19 | |
| β-strand | 297 | 1 | 4 |
| α-helix | 299-301 | 3 | |
| β-strand | 303-308 | 6 | 2 |
| β-strand | 312-315 | 4 | 2 |
| β-strand | 319-322 | 4 | 2 |
| α-helix | 325-327 | 3 | |
| α-helix | 328-343 | 16 | |
Chain M: 8 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 4 | 1 | 5 |
| β-strand | 15-21 | 7 | 6 |
| α-helix | 25-35 | 11 | |
| β-strand | 43-49 | 7 | 6 |
| α-helix | 54-56 | 3 | |
| β-strand | 66-71 | 6 | 6 |
| α-helix | 75-84 | 10 | |
| α-helix | 85-87 | 3 | |
| β-strand | 88 | 1 | 5 |
| α-helix | 90-93 | 4 | |
| β-strand | 97-102 | 6 | 6 |
| α-helix | 114-124 | 11 | |
| β-strand | 128-131 | 4 | 6 |
| α-helix | 136-153 | 18 | |
| α-helix | 162-169 | 8 | |
Chain N: 15 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-15 | 13 | |
| α-helix | 18-20 | 3 | |
| α-helix | 21-28 | 8 | |
| α-helix | 33-37 | 5 | |
| α-helix | 45-58 | 14 | |
| α-helix | 63-77 | 15 | |
| β-strand | 83-89 | 7 | 7 |
| α-helix | 101-115 | 15 | |
| β-strand | 120-124 | 5 | 7 |
| β-strand | 130-136 | 7 | 7 |
| α-helix | 143-145 | 3 | |
| β-strand | 149-155 | 7 | 7 |
| β-strand | 160-164 | 5 | 7 |
| α-helix | 172-182 | 11 | |
| β-strand | 187-195 | 9 | 7 |
| α-helix | 198-206 | 9 | |
| β-strand | 237-239 | 3 | 6 |
| α-helix | 242-256 | 15 | |
| α-helix | 260-262 | 3 | |
| β-strand | 266-273 | 8 | 2 |
| β-strand | 291-298 | 8 | 2 |
| α-helix | 305-312 | 8 | |
| β-strand | 315 | 1 | 4 |
| α-helix | 321-324 | 4 | |
| α-helix | 326-330 | 5 | |
| β-strand | 333-334 | 2 | 2 |
Chain O: 8 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 17-26 | 10 | |
| α-helix | 90-110 | 21 | |
| β-strand | 113-114 | 2 | 8 |
| β-strand | 117 | 1 | 9 |
| β-strand | 122 | 1 | 9 |
| β-strand | 124-130 | 7 | 8 |
| β-strand | 133-140 | 8 | 8 |
| β-strand | 153 | 1 | 8 |
| α-helix | 162-168 | 7 | |
| α-helix | 173-199 | 27 | |
| α-helix | 201-203 | 3 | |
| β-strand | 205 | 1 | 10 |
| α-helix | 208-209 | 2 | |
| β-strand | 210-211 | 2 | 10 |
| β-strand | 217-224 | 8 | 10 |
| β-strand | 231-238 | 8 | 10 |
| β-strand | 249-253 | 5 | 10 |
| α-helix | 262-277 | 16 | |
| α-helix | 280-288 | 9 | |
Chain P: 7 helices, 9 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 54-74 | 21 | |
| β-strand | 76-78 | 3 | 8 |
| β-strand | 82-88 | 7 | 8 |
| β-strand | 100-111 | 12 | 8 |
| β-strand | 114-125 | 12 | 8 |
| β-strand | 132-141 | 10 | 8 |
| α-helix | 148-160 | 13 | |
| α-helix | 164-190 | 27 | |
| β-strand | 195-196 | 2 | 11 |
| β-strand | 205-209 | 5 | 11 |
| β-strand | 217-226 | 10 | 11 |
| β-strand | 232-241 | 10 | 11 |
| α-helix | 244-249 | 6 | |
| α-helix | 255-257 | 3 | |
| α-helix | 258-269 | 12 | |
| α-helix | 272-281 | 10 | |
3 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Centromere protein H | H | protein | 247 | Homo sapiens | Q9H3R5 (AlphaFold model) |
| Centromere protein I | I | protein | 756 | Homo sapiens | Q92674 (AlphaFold model) |
| DNA (171-mer) | J | DNA | 171 | Homo sapiens | |
| Centromere protein K | K | protein | 269 | Homo sapiens | Q9BS16 (AlphaFold model) |
| Centromere protein L | L | protein | 344 | Homo sapiens | Q8N0S6 (AlphaFold model) |
| Centromere protein M | M | protein | 180 | Homo sapiens | Q9NSP4 |
| Centromere protein N | N | protein | 339 | Homo sapiens | Q96H22 |
| Centromere protein O | O | protein | 300 | Homo sapiens | Q9BU64 |
| Centromere protein P | P | protein | 288 | Homo sapiens | Q6IPU0 |
| Centromere protein Q | Q | protein | 268 | Homo sapiens | Q7L2Z9 |
| Centromere protein U | U | protein | 418 | Homo sapiens | Q71F23 |
| DNA (171-mer) | i | DNA | 171 | Homo sapiens | |
1 more molecules are not listed.
Sequence of entity 1 (H), FASTA
>7R5V_1 Centromere protein H (chains H)
MEEQPQMQDADEPADSGGEGRAGGPPQVAGAQAACSEDRMTLLLRLRAQTKQQLLEYKSM
VDASEEKTPEQIMQEKQIEAKIEDLENEIEEVKVAFEIKKLALDRMRLSTALKKNLEKIS
RQSSVLMDNMKHLLELNKLIMKSQQESWDLEEKLLDIRKKRLQLKQASESKLLEIQTEKN
KQKIDLDSMENSERIKIIRQNLQMEIKITTVIQHVFQNLILGSKVNWAEDPALKEIVLQL
EKNVDMM
Sequence of entity 2 (I), FASTA
>7R5V_2 Centromere protein I (chains I)
MSPQKRVKNVQAQNRTSQGSSSFQTTLSAWKVKQDPSNSKNISKHGQNNPVGDYEHADDQ
AEEDALQMAVGYFEKGPIKASQNKDKTLEKHLKTVENVAWKNGLASEEIDILLNIALSGK
FGNAVNTRILKCMIPATVISEDSVVKAVSWLCVGKCSGSTKVLFYRWLVAMFDFIDRKEQ
INLLYGFFFASLQDDALCPYVCHLLYLLTKKENVKPFRVRKLLDLQAKMGMQPHLQALLS
LYKFFAPALISVSLPVRKKIYFKNSENLWKTALLAVKQRNRGPSPEPLKLMLGPANVRPL
KRKWNSLSVIPVLNSSSYTKECGKKEMSLSDCLNRSGSFPLEQLQSFPQLLQNIHCLELP
SQMGSVLNNSLLLHYINCVRDEPVLLRFYYWLSQTLQEECIWYKVNNYEHGKEFTNFLDT
IIRAECFLQEGFYSCEAFLYKSLPLWDGLCCRSQFLQLVSWIPFSSFSEVKPLLFDHLAQ
LFFTSTIYFKCSVLQSLKELLQNWLLWLSMDIHMKPVTNSPLETTLGGSMNSVSKLIHYV
GWLSTTAMRLESNNTFLLHFILDFYEKVCDIYINYNLPLVVLFPPGIFYSALLSLDTSIL
NQLCFIMHRYRKNLTAAKKNELVQKTKSEFNFSSKTYQEFNHYLTSMVGCLWTSKPFGKG
IYIDPEILEKTGVAEYKNSLNVVHHPSFLSYAVSFLLQESPEERTVNVSSIRGKKWSWYL
DYLFSQGLQGLKLFIRSSVHHSSIPRAEGINCNNQY
Sequence of entity 3 (J), FASTA
>7R5V_3 DNA (171-MER) (chains J)
AATCTGCAAGTGGATATTTGGACCGCTTTGAGGCCTTCGTTGGAAACGGGAATATCTTCA
CATAAAAACTAAACAGAAGCATTCTCAGAAACTTCTTTGTGATGATTGCATTCAACTCAC
AGAGTTGAACATTCCTTTTGATAGAGCAGTTTTGAAACACTCTTTTTGTAG
Sequence of entity 4 (K), FASTA
>7R5V_4 Centromere protein K (chains K)
MNQEDLDPDSTTDVGDVTNTEEELIRECEEMWKDMEECQNKLSLIGTETLTDSNAQLSLL
IMQVKCLTAELSQWQKKTPETIPLTEDVLITLGKEEFQKLRQDLEMVLSTKESKNEKLKE
DLEREQRWLDEQQQIMESLNVLHSELKNKVETFSESRIFNELKTKMLNIKEYKEKLLSTL
GEFLEDHFPLPDRSVKKKKKNIQESSVNLITLHEMLEILINRLFDVPHDPYVKISDSFWP
PYVELLLRNGIALRHPEDPTRIRLEAFHQ
Sequence of entity 5 (L), FASTA
>7R5V_5 Centromere protein L (chains L)
MDSYSAPESTPSASSRPEDYFIGATPLQKRLESVRKQSSFILTPPRRKIPQCSQLQEDVD
PQKVAFLLHKQWTLYSLTPLYKFSYSNLKEYSRLLNAFIVAEKQKGLAVEVGEDFNIKVI
FSTLLGMKGTQRDPEAFLVQIVSKSQLPSENREGKVLWTGWFCCVFGDSLLETVSEDFTC
LPLFLANGAESNTAIIGTWFQKTFDCYFSPLAINAFNLSWMAAMWTACKMDHYVATTEFL
WSVPCSPQSLDISFAIHPEDAKALWDSVHKTPGEVTQEEVDLFMDCLYSHFHRHFKIHLS
ATRLVRVSTSVASAHTDGKIKILCHKYLIGVLAYLTELAIFQIE
Sequence of entity 6 (M), FASTA
>7R5V_6 Centromere protein M (chains M)
MSVLRPLDKLPGLNTATILLVGTEDALLQQLADSMLKEDCASELKVHLAKSLPLPSSVNR
PRIDLIVFVVNLHSKYSLQNTEESLRHVDASFFLGKVCFLATGAGRESHCSIHRHTVVKL
AHTYQSPLLYCDLEVEGFRATMAQRLVRVLQICAGHVPGVSALNLLSLLRSSEGPSLEDL
Sequence of entity 7 (N), FASTA
>7R5V_7 Centromere protein N (chains N)
MDETVAEFIKRTILKIPMNELTTILKAWDFLSENQLQTVNFRQRKESVVQHLIHLCEEKR
ASISDAALLDIIYMQFHQHQKVWEVFQMSKGPGEDVDLFDMKQFKNSFKKILQRALKNVT
VSFRETEENAVWIRIAWGTQYTKPNQYKPTYVVYYSQTPYAFTSSSMLRRNTPLLGQALT
IASKHHQIVKMDLRSRYLDSLKAIVFKQYNQTFETHNSTTPLQERSLGLDINMDSRIIHE
NIVEKERVQRITQETFGDYPQPQLEFAQYKLETKFKSGLNGSILAEREEPLRCLIKFSSP
HLLEALKSLAPAGIADAPLSPLLTCIPNKRMNYFKIRDK
Sequence of entity 8 (O), FASTA
>7R5V_8 Centromere protein O (chains O)
MEQANPLRPDGESKGGVLAHLERLETQVSRSRKQSEELQSVQAQEGALGTKIHKLRRLRD
ELRAVVRHRRASVKACIANVEPNQTVEINEQEALEEKLENVKAILQAYHFTGLSGKLTSR
GVCVCISTAFEGNLLDSYFVDLVIQKPLRIHHHSVPVFIPLEEIAAKYLQTNIQHFLFSL
CEYLNAYSGRKYQADRLQSDFAALLTGPLQRNPLCNLLSFTYKLDPGGQSFPFCARLLYK
DLTATLPTDVTVTCQGVEVLSTSWEEQRASHETLFCTKPLHQVFASFTRKGEKLDMSLVS
Sequence of entity 9 (P), FASTA
>7R5V_9 Centromere protein P (chains P)
MDAELAEVRALQAEIAALRRACEDPPAPWEEKSRVQKSFQAIHQFNLEGWKSSKDLKNQL
GHLESELSFLSTLTGINIRNHSKQTEDLTSTEMTEKSIRKVLQRHRLSGNCHMVTFQLEF
QILEIQNKERLSSAVTDLNIIMEPTECSELSEFVSRAEERKDLFMFFRSLHFFVEWFEYR
KRTFKHLKEKYPDAVYLSEGPSSCSMGIRSASRPGFELVIVWRIQIDEDGKVFPKLDLLT
KVPQRALELDKNRAIETAPLSFRTLVGLLGIEAALESLIKSLCAEENN
Sequence of entity 10 (Q), FASTA
>7R5V_10 Centromere protein Q (chains Q)
MSGKANASKKNAQQLKRNPKRKKDNEEVVLSENKVRNTVKKNKNHLKDLSSEGQTKHTNL
KHGKTAASKRKTWQPLSKSTRDHLQTMMESVIMTILSNSIKEKEEIQYHLNFLKKRLLQQ
CETLKVPPKKMEDLTNVSSLLNMERARDKANEEGLALLQEEIDKMVETTELMTGNIQSLK
NKIQILASEVEEEEERVKQMHQINSSGVLSLPELSQKTLKAPTLQKEILALIPNQNALLK
DLDILHNSSQMKSMSTFIEEAYKKLDAS
Sequence of entity 11 (U), FASTA
>7R5V_11 Centromere protein U (chains U)
MAPRGRRRPRPHRSEGARRSKNTLERTHSMKDKAGQKCKPIDVFDFPDNSDVSSIGRLGE
NEKDEETYETFDPPLHSTAIYADEEEFSKHCGLSLSSTPPGKEAKRSSDTSGNEASEIES
VKISAKKPGRKLRPISDDSESIEESDTRRKVKSAEKISTQRHEVIRTTASSELSEKPAES
VTSKKTGPLSAQPSVEKENLAIESQSKTQKKGKISHDKRKKSRSKAIGSDTSDIVHIWCP
EGMKTSDIKELNIVLPEFEKTHLEHQQRIESKVCKAAIATFYVNVKEQFIKMLKESQMLT
NLKRKNAKMISDIEKKRQRMIEVQDELLRLEPQLKQLQTKYDELKERKSSLRNAAYFLSN
LKQLYQDYSDVQAQEPNVKETYDSSSLPALLFKARTLLGAESHLRNINHQLEKLLDQG
Sequence of entity 12 (i), FASTA
>7R5V_12 DNA (171-MER) (chains i)
CTACAAAAAGAGTGTTTCAAAACTGCTCTATCAAAAGGAATGTTCAACTCTGTGAGTTGA
ATGCAATCATCACAAAGAAGTTTCTGAGAATGCTTCTGTTTAGTTTTTATGTGAAGATAT
TCCCCTTTCCAACGAAGGCCTCAAAGCGGTCCAAATATCCACTTGCAGATT
Primary citation
Structure of the human inner kinetochore bound to a centromeric CENP-A nucleosome. Yatskevich, S., Muir, K.W., Bellini, D. et al. Science (2022) 376:844-852. DOI 10.1126/science.abn3810 · PubMed
Other PDB entries of the same protein (UniProt Q9H3R5 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 7PB4 2.49 Å, Cenp-HIK 3-protein complex
- 28OP 2.7 Å, Structure of the human inner kinetochore CCAN and CENP-C bound to DNA
- 7R5S 2.83 Å, Structure of the human CCAN bound to alpha satellite DNA
- 7PKN 3.2 Å, Structure of the human CCAN deltaCT complex
- 7XHO 3.29 Å, Structure of human inner kinetochore CCAN complex
- 9TAW 3.54 Å, Structure of the human inner kinetochore CCAN bound to DNA
- 7XHN 3.71 Å, Structure of human inner kinetochore CCAN-DNA complex
- 9TAX 4.5 Å, Structure of the human inner kinetochore CCAN bound to a mono-CENP-A nucleosome
- 7QOO 4.6 Å, Structure of the human inner kinetochore CCAN complex
- 7YYH 8.9 Å, Structure of the human CCANdeltaT CENP-A alpha-satellite complex
- 7YWX 12.0 Å, Structure of the human CCAN CENP-A alpha-satellite complex
- 9TAY 15.5 Å, Structure of the human inner kinetochore CCAN bound to a di-CENP-A nucleosome
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